Building an ontology of pulmonary diseases with natural language processing tools using textual corpora

International Journal of Medical Informatics

Volumn 76, Issue 2-3, 2007, Pages 208-215

  Baneyx, Audrey ^a   Charlet, Jean ^a,b   Jaulent, Marie Christine ^a  

^a INSERM   (France)

^b ASSISTANCE PUBLIQUE HÔPITAUX DE PARIS   (France)

Author keywords

Knowledge engineering; Natural language processing; Ontology; Pulmonary diseases; Terminology extraction; Thesaurus

Indexed keywords

MEDICAL ITEMS; ONTOLOGY; TERMINOLOGY EXTRACTION;

AUTOMATION; COMPUTER SIMULATION; COMPUTER SOFTWARE; MEDICAL COMPUTING; NATURAL LANGUAGE PROCESSING SYSTEMS; PATHOLOGY; THESAURI;

PULMONARY DISEASES;

ARTICLE; AUTOMATION; COMPUTER PROGRAM; ENGINEERING; HOSPITAL DISCHARGE; HUMAN; LANGUAGE PROCESSING; LUNG DISEASE; METHODOLOGY; NOMENCLATURE; PRIORITY JOURNAL; SEMANTICS;

FRANCE; HUMANS; INTERNATIONAL CLASSIFICATION OF DISEASES; LUNG DISEASES; NATURAL LANGUAGE PROCESSING; TERMINOLOGY AS TOPIC; VOCABULARY, CONTROLLED;

EID: 33846892558     PISSN: 13865056     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ijmedinf.2006.05.031     Document Type: Article

References (23)

1. Rector A.L., Solomon W.D., Nowlan W.A., Rush T.W., Zanstra P.E., and Claassen W.M. A terminology server for medical language and medical information systems. Methods Inf. Med. 34 1-2 (1995) 147-157
2. Friedman C., Shagina L., Lussier Y., and Hripcsak G. Automated encoding of clinical documents based on natural language processing. J. Am. Med. Inf. Assoc. 11 5 (2004) 392-402
3. Bouaud J., Bachimont B., Charlet J., and Zweigenbaum P. Methodological principles for structuring an ontology. Proc. IJCAI-95-Workshop on Basic Ontological Issues in Knowledge Sharing (1995) 95-148
4. Staab S., and Studer R. Handbook on ontologies. Handbooks in Information Systems (2003), Springer, Berlin
5. Ontological engineering. In: Gomez-Pérez A., Fernandez-Lopez M., and Corcho O. (Eds). Advanced Information and Knowledge Processing. second ed. (2004), Springer, Madrid
6. Rector A.L. Thesauri and formal classifications: terminologies for people and machines. Methods Inf. Med. 37 (1998) 501-509
7. Gruber T.R. Toward principles for the designing of ontologies used for knowledge sharing. Int. J. Hum. Comput. Stud. 43 (1993) 907-928
8. Charlet J., Bachimont B., and Jaulent M.-C. Building medical ontologies by terminology extraction from texts: a proposal. Comput. Biol. Med. (2005) (ahead of print)
9. Bachimont B., Isaac A., and Troncy R. Semantic commitment for designing ontologies: a proposal. In: Gomez-Pérez A., and Richard Benjamins V. (Eds). Proc. EKAW (2002)
10. Simon J., Dos Santos M., Fielding J., and Smith B. Formal ontology for natural language processing and the integration of biomedical databases. Int. J. Med. Inf. 75 3-4 (2006) 224-231
11. Rastier F., Cavazza M., and Abeille A. Sémantique Pour l'analyse (1994), Masson, Paris
12. Habert B., Naulleau E., and Nazarenko A. Symbolic word clustering for medium-size corpora. In: Tsujii J.-I. (Ed). Proc. COLING (1996) 490-495
13. Harris Z. Mathematical Structures of Language (1968), John Wiley and Sons, New York
14. Hearst M.A. Automatic acquisition of hyponyms from large text corpora. In: Zampolli A. (Ed). Proc. COLING (1992) 539-545
15. Malaisé V., Zweigenbaum P., and Bachimont B. Mining defining contexts to help structuring differential ontologies. In: Ibekwe-San Juan F., Condamines A., and Cabré T. (Eds). Terminology 11 1 (2005) 21-53
16. Le Moigno S., Charlet J., Bourigault D., Degoulet P., and Jaulent M.-C. Terminology extraction from text to build an ontology in surgical intensive care. Proc. AMIA Symp. (2002) 9-13
17. C. Fabre, D. Bourigault, Linguistic clues for corpus-based acquisition of lexical dependencies, UCREL Technical Papers, Lancaster University, 13, 2001, pp. 176-184.
18. Abu-Hanna A., Cornet R., de Keizer N., Crubézy M., and Tu S. Protégé as a vehicle for developing medical terminological systems. Int. J. Hum. Comput. Stud. 62 (2005) 639-663
19. Zweigenbaum P., Bouaud J., Bachimont B., Charlet J., Séroussi B., and Boisvieux J.-F. From text to knowledge: a unifying document-oriented view of analyzed medical language. Methods Inf. Med. 37 4-5 (1998) 384-393
20. Spackman K.A., and Campbell K.E. Compositional concept representation using snomed: towards further convergence of clinical terminologies. Proc. AMIA Symp. (1998) 740-744
21. Spackman K.A., Campbell K.E., and Cote R.A. SNOMED RT: a reference terminology for health care. Proc. AMIA Annu. Fall Symp. (1997) 640-644
22. Trombert-Paviot B., Rodrigues J.-M., Rogers J., Baud R., van der Haring E., Rassinoux A.-M., Abrial V., Clavel L., and Idir H. Galen: a third generation terminology tool to support a multipurpose national coding system for surgical procedures. Int. J. Med. Inf. 58-59 (2000) 71-85
23. Gómez-Pérez A. Ontology evaluation. Handbook on Ontologies. first ed. (2004), Springer, Berlin pp. 251-275